ExperimentSetReplicate

ExperimentSet4DNESAGFJ56V
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Replicates of in situ DNase Hi-C on CRISPR/cas9-modified Patski cells (Del-Ds-TR)

   February 6th, 2018 at 9:57pm
Source Publication
Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome.
Bonora G, Deng X, et al., Nature communications 2018

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
immortalized cells
Sample 
Patski
Experiment Type(s) 
DNase Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Enzyme: DNaseI

5 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESAGFJ56V
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIL3QNEL3
9.85m
48.878%
24.07%
27.052%
Experiment
4DNEX5MUCNOA
Bio Rep 1, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Contact List-replicate (pairs)
4DNFIHTCMTBB
9.85m
48.878%
24.07%
27.052%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESAGFJ56V
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIV2D5P39
1000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX5MUCNOA
Bio Rep 1, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Alignments (bam)
4DNFIEYAONT4
30.28m
12.855%
13.688%
3.724%
37.193%
0.09%